Gluten Free Sourdough Discard Muffins are a delicious way to repurpose excess gluten-free sourdough starter that would otherwise be discarded during the feeding process. My recipe for sourdough discard muffins is a great base recipe to have on hand. Add fresh blueberries, strawberries, or even chocolate chips. I turned mine into blueberry white chocolate chip muffins because it's one of my favorite combinations.
Thanks to the fermented nature of the discard, incorporating gluten-free sourdough discard into muffin batter adds a subtle tanginess and depth of flavor. Additionally, the acidity of sourdough discard helps tenderize the muffins, resulting in a moist and flavorful crumb.

Jump to:
- Recipe Ingredient Notes
- Benefits of using Sourdough Discard in Muffins
- Variations of Gluten Free Sourdough Discard Muffins
- Gluten Free Sourdough Discard Muffin Batter
- Baking Instructions
- Storage & Freezing
- FAQ - Gluten Free Sourdough Discard Muffins
- Join my Gluten Free Community!
- Note about Salt in my Recipes
- Baking in grams
- Note about Ovens and Oven Temperatures
- Substitutions and Modifications
- More Gluten Free Sourdough Discard Recipes
- 📖 Recipe
- 💬 Comments
Recipe Ingredient Notes
Gluten Free Flour: I have successfully tested these Gluten-Free Sourdough Discard Muffins with my homemade gluten-free flour blend, Bob's Red Mill 1-to-1, and King Arthur Measure for Measure. Each flour blend produces a beautiful, light crumb. I am not saying other gluten-free flour blends won't work with this application; I didn't try them to make this recipe.
Gluten-Free Sourdough Discard: A sourdough discard refers to a portion of the gluten-free sourdough starter that is removed and discarded during the feeding process. For this sourdough discard muffin recipe, you can use a fed or unfeed gluten-free sourdough starter. I prefer using room temperature discard. The added sourdough starter discard not only provides moisture but also adds a delicious depth of flavor to the muffins. Using sourdough discard in muffins is a great way to reduce food waste. Rather than throwing away excess sourdough starter during the feeding process, you can repurpose it to create flavorful baked goods like muffins. Make sure the sourdough discard comes from a starter that is at least 7 days old (or older and more established).
Oil & Butter: I am a big fan of using part melted butter and part oil in my gluten-free baked goods. This way, the end products have a delicious buttery flavor and beautiful structure but stay moist longer thanks to the oil. I recommend using a neutral oil such as grapeseed or even a mild olive. I have not tried this recipe with melted coconut oil.
Sourcream: Sourcream not only provides flavor to these sourdough discard muffins but also fat. I have tested this recipe with Greek yogurt and sour cream, and both products work interchangeably.
Add-Ins: I use fresh blueberries, white chocolate chips, and lemon zest in this sourdough muffin recipe. Blueberry White Chocolate Muffins are a delicious combination. Here is a list of delicious combinations of add-ins for muffins to try.

Benefits of using Sourdough Discard in Muffins
Flavor: Sourdough discard contributes a tangy flavor to muffins, enhancing their taste profile. This tanginess can add depth and complexity to the flavor, making the muffins more interesting and delicious.
Moisture: Sourdough discard contains water, which can help keep the muffins moist during baking. This moisture can prevent the muffins from drying out, resulting in a more tender and enjoyable texture.
Texture: The acidity in sourdough discard can also interact with other ingredients in the muffin batter, potentially improving the texture. It can help create a softer crumb and improve the overall mouthfeel of the muffins.
Nutritional Benefits: Sourdough discard contains beneficial bacteria and yeast from the sourdough starter, which may have some health benefits. While the levels may not be as high as in an active starter, incorporating sourdough discard into baked goods can still provide some probiotic benefits.
Reducing Waste: Using sourdough discard in muffins is a great way to reduce food waste. Instead of discarding excess sourdough starter during the feeding process, it can be repurposed into delicious recipes, providing an eco-friendly solution to minimize kitchen waste.
Variations of Gluten Free Sourdough Discard Muffins
My Gluten Free Sourdough Discard Muffin Recipe is a great base recipe to have on hand. Here are some delicious flavor variations for you to try. Feel free to get creative and experiment with other flavor combinations using this versatile gluten free muffin batter as a base. Several streusel toppings on my website would work great as a sourdough muffin topper.
Orange Cranberry Muffins: Fold 150 grams of fresh cranberries (chopped into smaller pieces) and the zest of 2 oranges into the muffin batter. Toss the cranberries in some flour before adding them so they don't sink. If you like, work the orange zest into the sugar for extra orange flavor.
Strawberry Muffins: Add 250 grams of diced fresh strawberries to the muffin batter along with ⅛ teaspoon almond extract (a little goes a long way). These would even be delicious with a little cream cheese in the middle.
Chocolate Chip Sourdough Muffins: Fold 150-175 grams Mini Chocolate Chips into the batter. If you like, top the chocolate chip muffins with additional chocolate chips before baking.

Gluten Free Sourdough Discard Muffin Batter
This gluten-free muffin batter is very straightforward. I make it in a large mixing bowl and use a whisk to combine the ingredients. For ease, I use a large cookie scoop to portion the batter into the muffin tin. Ensure the ingredients like the eggs, sour cream, and sourdough discard are at room temperature. In the instructions, I use fresh blueberries, white chocolate, and lemon zest as my add-ins to make Blueberry White Chocolate Chip Muffins.
Step 1: Line your muffin tin with 12 muffin liners and set aside. Sometimes, the liners are called Muffin Cups or Cupcake liners. I wait to preheat the oven until the muffin batter has been made and rests in the fridge.
Step 2: Begin by melting the butter in a small microwave-safe bowl. Since it's only a small amount, this should only take 30-60 seconds. Allow it to cool for a few minutes, then combine it with the oil. Set aside.
Step 3: Sift or whisk together gluten-free multi-purpose flour, cornstarch, baking powder, baking soda, and kosher salt in a small bowl and set aside.
Step 4: In a large bowl, combine the brown sugar (light or dark brown sugar works here), granulated sugar, and lemon zest. Using your fingers or the back of a spoon, rub the zest into the sugar. This will bring out the oils and lemon flavor of the zest and give the sourdough muffins a little lemon flavor without adding lemon extract.
Step 5: Add the room-temperature eggs and a generous teaspoon vanilla extract to the lemon sugar and whisk until smooth.

Step 6: Add the gluten-free sourdough discard and sour cream to the mix once the egg and sugar are combined. Whisk together. My sourdough discard has the consistency of warmed-up peanut butter. Sourdough discards can have different textures and consistencies depending on which flour you use (I use a mix of Sorghum and Fine Brown Rice Flour)
Step 7: Add the melted butter and oil to the mixture and whisk until fully combined.

Step 8: In a small bowl, combine the fresh blueberries, white chocolate chips, and 1 teaspoon of the dry ingredients. This will help the fruit stick to the sourdough discard muffin batter and prevent it from sinking to the bottom of the muffins. Set aside.
Step 9: Add the dry ingredients to the wet ingredients and whisk to combine. Switch to a flexible rubber spatula and fold everything together. While we don’t have to worry about building gluten, try not to overmix your batter.
Step 10: Fold the flour-coated blueberries and white chocolate into the muffin batter with a rubber spatula.

Step 11: Retrieve the prepared muffin pan and divide the batter between the papers with the large cookie scoop. I fill mine almost to the rim. Depending on your scooping and the size of your paper liners, this recipe should yield 12-14 muffins.
Step 12: Top each muffin with additional blueberries and coarse sugar if you like. Be careful when topping them with additional white chocolate, as it tends to burn quickly (I am speaking from experience).
Step 13: Place the gluten-free sourdough blueberry muffins in the fridge while your oven preheats to 450F. Allowing the batter to rest, even for 15-30 minutes, will help hydrate the flour, building a better crumb. Also, cold muffin batter will rise higher!
Baking Instructions
The high initial temperature of the oven helps to create immediate heat, causing the leavening agents (baking powder and/or baking soda) in the batter to activate rapidly. This rapid rise produces a lighter, airier texture in the muffins.
Step 1: When ready to bake the gluten-free muffins, place them in the fully preheated oven and bake them at 450F for 7 minutes, then reduce the oven temperature to 350F without opening the oven door. Bake the muffins until they are golden brown, around 15-17minutes. The muffins are done when until they are golden brown, and a toothpick inserted in the center comes out clean. Make sure not to overbake them. That will cause them to dry out. Baking times depend on how many muffins you divide the batter into and your oven. Smaller Muffins bake faster, while larger muffins take longer to bake.
Step 2: Allow the gluten-free muffins to cool in the muffin pan for 5-10 minutes before transferring them to a wire rack. I remove them from the muffin pan with a spoon or a butter knife.

Storage & Freezing
Store the gluten-free sourdough discard muffins in an airtight container at room temperature for up to 5 days. While most muffins are best the day they are baked, these were delicious the day after.
To freeze the gluten-free muffins, place them on a sheet tray and pop them in the freezer for 30-45 minutes or until they are solid. Once frozen, transfer them to an airtight container or freezer bag and freeze for up to 3 months. When ready to eat, allow them to thaw at room temperature or nuke in the microwave for 15-30 seconds.
FAQ - Gluten Free Sourdough Discard Muffins
Sourdough starter is the active culture of wild yeast and bacteria used to leaven sourdough bread, while sourdough discard is the portion of the starter that is removed and discarded during the feeding process.
Make sure to wait to use gluten-free sourdough discard until your starter is at least seven days old. Before that, the discard from your sourdough can be discarded.
Yes. When I owned my bakery, I would make my muffin batter the night before and bake it in the morning. Assemble the muffins in the muffin tin and refrigerate overnight. Make sure to cover them. When ready to bake, bake as directed. Muffin Batter can be made 24-36hrs in advance.

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Note about Salt in my Recipes
I use Diamond Kosher Crystal Salt in all of my recipes unless otherwise stated. If use use a different brand or kind of salt in your kitchen please adjust accordingly since some salts can be saltier. If you use Morton’s Kosher Salt please be aware that their salt granules are smaller in size, denser, and crunchier and twice as salty.
Baking in grams
I share my recipes in grams and by weight since baking by weight is the most accurate way to bake. Digital Scales are very affordable and easy to use. You can purchase them on Amazon for less than a set of measuring cups. For small amounts under 10 grams, I like to use this Precision Pocket Scale. Measuring cups are very inaccurate which can cause significant errors when it comes to gluten-free baking or baking in general. Especially since I bake with gluten-free flours which weigh differently than “regular” flours. I do provide some ingredients like spices and leavening agents in measuring spoons. To learn more about Baking with a digital scale, make sure to check out my post about Baking by weight.
Note about Ovens and Oven Temperatures
All my recipes are tested and developed with a conventional oven. I always bake my baked goods on the rack placed in the MIDDLE of my oven. This way the heat coming from the bottom will not burn my baked goods.
If you are baking with convection (fan-forced), please adjust the recipes accordingly. Convection oven can cause baked goods to dry out quickly and still be raw inside. Since takes at least 15-20 minutes for a standard American Oven to be fully preheated. I highly recommend investing in an Oven Thermometer.
Substitutions and Modifications
Any dietary or ingredient modifications/substitutions to this recipe may alter the end result in appearance and taste. I test my recipes several times as published in this post and The Gluten Free Austrian Blog is not responsible for the outcome of any recipe you find on our website.

More Gluten Free Sourdough Discard Recipes
📖 Recipe
Gluten Free Sourdough Discard Muffins
Gluten Free Sourdough Discard Muffins are a flavorful and clever way to repurpose excess gluten free sourdough starter. Add fresh blueberries, strawberries, or even chocolate chips to turn this gluten free muffin recipe into your new favorite muffin.
Ingredients
Gluten Free Sourdough Discard Muffins
- 55 grams unsalted butter, can be cold
- 55 grams neutral oil, like vegetable oil
- 260 grams gluten free flour
- 25 grams cornstarch
- 9 grams baking powder
- 3 grams baking soda
- 3 grams kosher salt
- 75 grams brown sugar (light or dark)
- 125 grams granulated sugar
- 2 large eggs, at room temperature
- 1 teaspoon vanilla extract
- 45 grams sour cream, at room temperature
- 125 grams gluten free sourdough discard
Add Ins (To make Blueberry White Chocolate Muffins)
- Zest of a lemon
- 150 grams fresh blueberries (if frozen do not thaw)
- 50 grams white chocolate chips
- Additional blueberries and Coarse Sugar for decoration
Instructions
Gluten Free Sourdough Discard Muffin Batter
- Line a muffin tin with 12 muffin liners and set aside. I wait to preheat the oven until the muffin batter has been made and rests in the fridge.
- Begin by melting the butter in a small microwave-safe bowl. Allow it to cool for a few minutes, then combine it with the oil. Set aside.
- Sift or whisk together gluten-free multi-purpose flour, cornstarch, baking powder, baking soda, and kosher salt in a small bowl and set aside.
- In a large bowl, combine the brown sugar, granulated sugar, and lemon zest. Using your fingers or the back of a spoon, rub the zest into the sugar. This will bring out the oils and lemon flavor of the zest and give the sourdough muffins a little lemon flavor without adding lemon extract.
- Add the room-temperature eggs and a generous teaspoon of vanilla extract to the lemon sugar and whisk until smooth.
- Once the egg and sugar are combined, add the gluten-free sourdough discard and sour cream to the mix. Whisk together.
- Add the melted butter and oil to the mixture and whisk until fully combined.
- In a small bowl, combine the fresh blueberries, white chocolate chips, and 1 teaspoon of the dry ingredients. This will help the fruit stick to the sourdough discard muffin batter and prevent it from sinking to the bottom of the muffins. Set aside.
- Add the dry ingredients to the wet ingredients and whisk to combine. Switch to a flexible rubber spatula and fold everything together. While we don’t have to worry about building gluten, try not to overmix your batter.
- Fold the flour-coated blueberries and white chocolate with a rubber spatula into the bread batter.
- Retrieve the prepared muffin pan and divide the batter between the papers with the large cookie scoop. I fill mine almost to the rim. Depending on your scooping and the size of your paper liners, this recipe should yield 12-14 muffins.
- You can top each muffin with additional blueberries and coarse sugar if you like. However, be careful when topping them with additional white chocolate, as it tends to burn quickly (I speak from experience).
- Place the gluten-free sourdough blueberry muffins in the fridge while your oven preheats to 450F. Allowing the batter to rest, even for 15-30 minutes, will help hydrate the flour, building a better crumb. Also, cold muffin batter will rise higher!
Baking Instructions
- When ready to bake the gluten-free muffins, place them in the fully preheated oven and bake them at 450F for 7 minutes, then reduce the oven temperature to 350F without opening the oven door. Bake the muffins until they are golden brown, around 15-17minutes.
- The muffins are done when until they are golden brown, and a toothpick inserted in the center comes out clean. Make sure not to overbake them. That will cause them to dry out. Baking times depend on how many muffins you divide the batter into and your oven. Smaller Muffins bake faster, while larger muffins take longer to bake.
- Allow the gluten-free muffins to cool in the pan for 5-10 minutes before transferring them to a wire rack. I remove them from the muffin pan with a spoon or a butter knife.
Notes
Variations of Gluten Free Sourdough Discard Muffins
Feel free to get creative and experiment with other flavor combinations using this versatile gluten free muffin batter as a base.
Orange Cranberry Muffins: Fold 150 grams of fresh cranberries (chopped into smaller pieces) and the zest of 2 oranges into the muffin batter. Toss the cranberries in some flour before adding them so they don't sink. If you like, work the orange zest into the sugar for extra orange flavor.
Strawberry Muffins: Add 250 grams of diced fresh strawberries to the muffin batter along with ⅛ teaspoon almond extract (a little goes a long way). These would even be delicious with a little cream cheese in the middle.
Chocolate Chip Sourdough Muffins: Fold 150-175 grams Mini Chocolate Chips into the batter. If you like, top the chocolate chip muffins with additional chocolate chips before baking.
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Nutrition Information:
Yield:
12Serving Size:
1Amount Per Serving: Calories: 316
Calories are a guestimate and randomly generated.










Val says
Best GF blueberry muffins ever! They’re moist and flavorful without being heavy or too airy.
Becca says
I found your blog recently when searching for ways to use to sourdough discard and I’m so glad I did! These muffins are some of the best I’ve had, I loved the texture and they weren’t overly sweet. I was sad I didn’t have white chocolate chips to add with the blueberries, I’ll try that another time. For reference, I doubled it without a problem, I used Namaste brand GF flour blend which is readily available at Costco in the US, and I bake at approximately 5,000 feet above sea level and didn’t need to make any leavening adjustments.
Thank you for a great recipe, I’m excited to try more of your recipes!
Daniela says
Thank you for sharing. Especially that you bake at 5000 ft above sea level. It's pretty flat here in Chicago so clearly I have NO idea how to bake at high altitude.
Taylor says
Love these muffins, made the strawberry version and the batter was thick but they came out delicious and moist, I wanted to make these for my dad when I visit but he doesn’t have a sourdough discard, would could I do to replace using discard?
Daniela says
Hi Taylor! You could replace the sourdough discard with 60 grams of brown rice flour and 60 grams of water. Sourdough discard is basically made up from 50% water and 50% gluten free flour (in this case a flour like brown rice flour or sorghum). I hope this helps.
Also - if you have an established sourdough starter you can feed it with a bigger "meal" (like 30 grams of flour and 30 grams of water) without discarding anything a few meals in a row (like 2-3 meals). That will get you some discard to use in no time.
Francine P says
Fantastic strawberry muffins with cheesecake top...( I improvised) I also made these jumbo so I use the entire recipe to make jumbo gluten free sourdough discard strawberry cheesecake muffins....such a hit better than boutique bakeries in Greenwich village, New York which has some of the best gluten-free bakeries...❤️❤️❤️thank you!
Mary E Emanuel says
I wondered if you recommend fermenting the batter before baking? I generally ferment my sourdough doughs and batters before baking. Trying GF recipes is new for me so wanted to ask before I tried some of yours. Thanks!
Daniela says
You can refrigerate the batter overnight in the fridge but it’s not necessary:) The muffins will be delicious regardless
Callie says
First, I can't wait to try this recipe. By tomorrow I will have plenty of gluten-free sourdough discard lol. My son has recently gone gluten-free because of possible celiac disease. We are still waiting for the blood test results. Anyway, as I was reading the recipe I wondered what the purpose of the cornstarch is.
Thank you so much for posting so many GF sourdough recipes. My son's main purpose was he didn't want to live his life without sourdough cinnamon rolls lol. That, however, is not a discard recipe and will definitely have to be adjusted a good bit prior to baking them.
So, just wondering the purpose of the cornstarch. Thank you in advance for your time. I totally appreciate your recipes.
Daniela says
Cornstarch helps to create a lighter, finer texture. It also helps with the structure of the finished product
Delia says
Absolutely delicious! I make a lot of sourdough and have recently added gluten-free into my cooking so that everyone I know can have something. These are delicious! I was concerned how thick the batter was, but they came out perfect! The crumb was amazing and even non-gluten-free enjoyed these! Very excited to try the other combinations.
Do you have a banana muffin recipe as well? Or what modifications would I need to make this into banana muffins?
Daniela says
Hi Delia! I do have a banana muffin but it’s not made with sourdough discard (still a very delicious recipe): Gluten Free Banana Muffins
Aura says
I’m excited to try this recipe! I see eggs mentioned in the instructions but not in the ingredients list. How many eggs should I use?
Daniela says
huh? the recipe says 2 eggs - it’s right there in the recipe card.
Aura says
Omg I’m sorry! Must have been so excited about baking these muffins my eyes skipped right over it lol. Thanks for the quick reply though 🙂
Daniela says
no problem 🙂
Erin says
Hi,
Love both of your gf sourdough muffin recipes.
How would you adapt this one to make it a savoury one? Leaving out the sugar and vanilla essence - how much extra oil/butter would you add?
I did try 75grams of grated cheese and Italian seasoning but the dough didn’t cook well.
Many thanks
Daniela says
Hi Erin, that’s a completely new recipe you are asking about. I am happy to add a savory sourdough muffin to my recipe list.
Erin says
Yes please! That would be amazing.